ReviewCold Spring Harbor symposia on quantitative biology2015
HIPMap: A High-Throughput Imaging Method for Mapping Spatial Gene Positions.
Review in Cold Spring Harbor symposia on quantitative biology, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
19 citing papers in PubMed, 36 citations in OpenAlex.
- Pooled CRISPR screening with optical sequencing reveals regulators of 3D chromatin organization.Nature methods · 2025Article
- Machine and Deep Learning Methods for Predicting 3D Genome Organization.Methods in molecular biology (Clifton, N.J.) · 2025Review
- Article
- A spatial genome aligner for resolving chromatin architectures from multiplexed DNA FISH.Nature biotechnology · 2023Article
- Article
- Nuclear position modulates long-range chromatin interactions.PLoS genetics · 2022Article
- Integrative genome modeling platform reveals essentiality of rare contact events in 3D genome organizations.Nature methods · 2022Article
- Large-scale mapping of positional changes of hypoxia-responsive genes upon activation.Molecular biology of the cell · 2022Article
- The 3D Genome: From Structure to Function.International journal of molecular sciences · 2021Review
- A supervised learning framework for chromatin loop detection in genome-wide contact maps.Nature communications · 2020Article
- SIRT6 promotes transcription of a subset of NRF2 targets by mono-ADP-ribosylating BAF170.Nucleic acids research · 2019Article
- A guide to visualizing the spatial epigenome with super-resolution microscopy.The FEBS journal · 2019Review
- Article
- Light and temperature shape nuclear architecture and gene expression.Current opinion in plant biology · 2018Review
- Condensin II drives large-scale folding and spatial partitioning of interphase chromosomes in Drosophila nuclei.PLoS genetics · 2018Article
- Comparative analysis of 2D and 3D distance measurements to study spatial genome organization.Methods (San Diego, Calif.) · 2017Article
- Causes and consequences of nuclear gene positioning.Journal of cell science · 2017Review
- Imaging Specific Genomic DNA in Living Cells.Annual review of biophysics · 2016Review
- Spectral imaging to visualize higher-order genomic organization.Nucleus (Austin, Tex.) · 2016Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
3 authors at 2 institutions in 1 country.
Funding
Abstract
The three-dimensional organization of genes inside the cell nucleus affects their functions including DNA transcription, replication, and repair. A major goal in the field of nuclear architecture is to determine what cellular factors establish and maintain the position of individual genes. Here, we describe HIPMap, a high-throughput imaging and analysis pipeline for the mapping of endogenous gene loci within the 3D space of the nucleus. HIPMap can be used for a variety of applications including screening, mapping translocations, validating chromosome conformation capture data, probing DNA-protein interactions, and interrogation of the relationship of gene expression with localization.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.